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comparison vcfallelicprimitives.xml @ 1:f49b23b41a12 draft

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planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tool_collections/vcflib/vcfallelicprimitives commit a1517c9d22029095120643bbe2c8fa53754dd2b7
author devteam
date Wed, 11 Nov 2015 12:57:29 -0500
parents 3f4fefbc52c8
children 0a69cff7946e
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equal deleted inserted replaced
0:3f4fefbc52c8 1:f49b23b41a12
15 $keep_geno > "${out_file1}" 15 $keep_geno > "${out_file1}"
16 </command> 16 </command>
17 <inputs> 17 <inputs>
18 <param format="vcf" name="input" type="data" label="Select VCF dataset"/> 18 <param format="vcf" name="input" type="data" label="Select VCF dataset"/>
19 <param name="m_option" type="boolean" checked="false" truevalue="--use-mnps" falsevalue="" label="Retain MNPs as separate events" help="--use-mnps option"/> 19 <param name="m_option" type="boolean" checked="false" truevalue="--use-mnps" falsevalue="" label="Retain MNPs as separate events" help="--use-mnps option"/>
20 <param name="t_option" size="20" type="text" value="Split primitives" label="Tag records which are split apart of a complex allele with this flag. " help="--tag-parsed option"/> 20 <param name="t_option" type="text" value="Split primitives" label="Tag records which are split apart of a complex allele with this flag. " help="--tag-parsed option"/>
21 <param name="max_length" type="integer" size="4" value="200" label="Do not manipulate records in which either the ALT or REF is longer than (bp)" help="--max-length option"/> 21 <param name="max_length" type="integer" value="200" label="Do not manipulate records in which either the ALT or REF is longer than (bp)" help="--max-length option"/>
22 <param name="keep_info" type="boolean" truevalue="--keep-info" falsevalue="" checked="False" 22 <param name="keep_info" type="boolean" truevalue="--keep-info" falsevalue="" checked="False"
23 label="Maintain site and allele-level annotations when decomposing" 23 label="Maintain site and allele-level annotations when decomposing"
24 help="Note that in many cases, such as multisample VCFs, these won't be valid post-decomposition. For biallelic loci in single-sample VCFs, they should be usable with caution. (--keep-info)"/> 24 help="Note that in many cases, such as multisample VCFs, these won't be valid post-decomposition. For biallelic loci in single-sample VCFs, they should be usable with caution. (--keep-info)"/>
25 <param name="keep_geno" type="boolean" truevalue="--keep-geno" falsevalue="" checked="False" 25 <param name="keep_geno" type="boolean" truevalue="--keep-geno" falsevalue="" checked="False"
26 label="Maintain genotype-level annotations when decomposing" 26 label="Maintain genotype-level annotations when decomposing"